6LCS
 
 | | Crystal structure of 73MuL9 Fv-clasp fragment in complex with GA-pyridine analogue | | Descriptor: | (2~{S})-6-[4-(hydroxymethyl)-3-oxidanyl-pyridin-1-ium-1-yl]-2-(phenylmethoxycarbonylamino)hexanoic acid, PHOSPHATE ION, VH-SARAH, ... | | Authors: | Nakamura, T, Takagi, J, Yamagata, Y, Morioka, H. | | Deposit date: | 2019-11-19 | | Release date: | 2020-11-25 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Molecular recognition of a single-chain Fv antibody specific for GA-pyridine, an advanced glycation end-product (AGE), elucidated using biophysical techniques and synthetic antigen analogues.
J.Biochem., 170, 2021
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6LZ4
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2ZOU
 | | Crystal structure of human F-spondin reeler domain (fragment 2) | | Descriptor: | 1,2-ETHANEDIOL, Spondin-1 | | Authors: | Nagae, M, Nogi, T, Takagi, J. | | Deposit date: | 2008-06-07 | | Release date: | 2008-10-14 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.45 Å) | | Cite: | Structure of the F-spondin reeler domain reveals a unique beta-sandwich fold with a deformable disulfide-bonded loop
Acta Crystallogr.,Sect.D, 64, 2008
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2ZOT
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2ZPK
 | | Crystal structure of P20.1 Fab fragment in complex with its antigen peptide | | Descriptor: | GLYCEROL, IgG1-lambda P20.1 Fab (heavy chain), IgG1-lambda P20.1 Fab (light chain), ... | | Authors: | Nogi, T, Sanagawa, T, Takagi, J. | | Deposit date: | 2008-07-16 | | Release date: | 2008-12-23 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Novel affinity tag system using structurally defined antibody-tag interaction: application to single-step protein purification
Protein Sci., 17, 2008
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3A7Q
 | | Structural basis for specific recognition of reelin by its receptors | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ... | | Authors: | Yasui, N, Nogi, T, Takagi, J. | | Deposit date: | 2009-10-01 | | Release date: | 2010-03-23 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Structural Basis for Specific Recognition of Reelin by Its Receptors
Structure, 18, 2010
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3AFC
 | | Mouse Semaphorin 6A extracellular domain | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Semaphorin-6A | | Authors: | Yasui, N, Nogi, T, Mihara, E, Takagi, J. | | Deposit date: | 2010-02-26 | | Release date: | 2010-10-06 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structural basis for semaphorin signalling through the plexin receptor.
Nature, 467, 2010
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3AL8
 | | Plexin A2 / Semaphorin 6A complex | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-A2, ... | | Authors: | Nogi, T, Yasui, N, Mihara, E, Takagi, J. | | Deposit date: | 2010-07-28 | | Release date: | 2010-10-06 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (3.6 Å) | | Cite: | Structural basis for semaphorin signalling through the plexin receptor.
Nature, 467, 2010
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3AL9
 | | Mouse Plexin A2 extracellular domain | | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-A2 | | Authors: | Nogi, T, Yasui, N, Mihara, E, Takagi, J. | | Deposit date: | 2010-07-28 | | Release date: | 2010-10-06 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Structural basis for semaphorin signalling through the plexin receptor.
Nature, 467, 2010
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3ASI
 | | Alpha-Neurexin-1 ectodomain fragment; LNS5-EGF3-LNS6 | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, Neurexin-1-alpha | | Authors: | Tanaka, H, Nogi, T, Yasui, N, Takagi, J. | | Deposit date: | 2010-12-13 | | Release date: | 2011-04-13 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Structural Basis for Variant-Specific Neuroligin-Binding by alpha-Neurexin
Plos One, 6, 2011
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7VG7
 | | Plexin B1 extracellular fragment in complex with lasso-grafted PB1m6A9 peptide | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-B1, TRIETHYLENE GLYCOL, ... | | Authors: | Sugano, N.N, Hirata, K, Yamashita, K, Yamamoto, M, Arimori, T, Takagi, J. | | Deposit date: | 2021-09-14 | | Release date: | 2022-08-17 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | De novo Fc-based receptor dimerizers differentially modulate PlexinB1 function.
Structure, 30, 2022
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3WSY
 | | SorLA Vps10p domain in complex with its own propeptide fragment | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Sortilin-related receptor, peptide from Sortilin-related receptor | | Authors: | Kitago, Y, Nakata, Z, Nagae, M, Nogi, T, Takagi, J. | | Deposit date: | 2014-03-30 | | Release date: | 2015-02-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.11 Å) | | Cite: | Structural basis for amyloidogenic peptide recognition by sorLA.
Nat.Struct.Mol.Biol., 22, 2015
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3WSZ
 | | SorLA Vps10p domain in complex with Abeta-derived peptide | | Descriptor: | 10-mer peptide, 2-acetamido-2-deoxy-beta-D-glucopyranose, Sortilin-related receptor | | Authors: | Kitago, Y, Nakata, Z, Nagae, M, Nogi, T, Takagi, J. | | Deposit date: | 2014-03-30 | | Release date: | 2015-02-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.201 Å) | | Cite: | Structural basis for amyloidogenic peptide recognition by sorLA.
Nat.Struct.Mol.Biol., 22, 2015
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3WSX
 | | SorLA Vps10p domain in ligand-free form | | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, PHOSPHATE ION, ... | | Authors: | Kitago, Y, Nakata, Z, Nagae, M, Nogi, T, Takagi, J. | | Deposit date: | 2014-03-30 | | Release date: | 2015-02-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Structural basis for amyloidogenic peptide recognition by sorLA.
Nat.Struct.Mol.Biol., 22, 2015
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5XCR
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5XCX
 | | Crystal structure of TS2/16 Fv-clasp fragment | | Descriptor: | 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID, GLYCEROL, PHOSPHATE ION, ... | | Authors: | Arimori, T, Takagi, J. | | Deposit date: | 2017-03-23 | | Release date: | 2017-10-04 | | Last modified: | 2017-10-18 | | Method: | X-RAY DIFFRACTION (2.04 Å) | | Cite: | Fv-clasp: An Artificially Designed Small Antibody Fragment with Improved Production Compatibility, Stability, and Crystallizability
Structure, 25, 2017
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5XAU
 | | Crystal structure of integrin binding fragment of laminin-511 | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ... | | Authors: | Takizawa, M, Arimori, T, Kitago, Y, Takagi, J, Sekiguchi, K. | | Deposit date: | 2017-03-15 | | Release date: | 2017-09-20 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Mechanistic basis for the recognition of laminin-511 by alpha 6 beta 1 integrin.
Sci Adv, 3, 2017
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5XCS
 | | Crystal structure of 12CA5 Fv-clasp fragment with its antigen peptide | | Descriptor: | HA peptide, SULFATE ION, VH-SARAH(Y35C) chimera, ... | | Authors: | Arimori, T, Takagi, J. | | Deposit date: | 2017-03-23 | | Release date: | 2017-10-04 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Fv-clasp: An Artificially Designed Small Antibody Fragment with Improved Production Compatibility, Stability, and Crystallizability
Structure, 25, 2017
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5XCU
 | | Crystal structure of 12CA5 Fv-clasp fragment with its antigen peptide | | Descriptor: | HA peptide, SULFATE ION, VH(S112C)-SARAH chimera,VH(S112C)-SARAH chimera, ... | | Authors: | Arimori, T, Takagi, J. | | Deposit date: | 2017-03-23 | | Release date: | 2017-10-04 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.454 Å) | | Cite: | Fv-clasp: An Artificially Designed Small Antibody Fragment with Improved Production Compatibility, Stability, and Crystallizability
Structure, 25, 2017
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5XCQ
 | | Crystal structure of P20.1 Fv-clasp fragment with its antigen peptide | | Descriptor: | C8 peptide, SULFATE ION, VH-SARAH(Y35C)chimera, ... | | Authors: | Arimori, T, Takagi, J. | | Deposit date: | 2017-03-23 | | Release date: | 2017-10-04 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.313 Å) | | Cite: | Fv-clasp: An Artificially Designed Small Antibody Fragment with Improved Production Compatibility, Stability, and Crystallizability
Structure, 25, 2017
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5XCV
 | | Crystal structure of NZ-1 Fv-clasp fragment with its antigen peptide | | Descriptor: | CALCIUM ION, PA14 peptide, VH(S112C)-SARAH chimera,VH(S112C)-SARAH chimera, ... | | Authors: | Arimori, T, Takagi, J. | | Deposit date: | 2017-03-23 | | Release date: | 2017-10-11 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.143 Å) | | Cite: | Fv-clasp: An Artificially Designed Small Antibody Fragment with Improved Production Compatibility, Stability, and Crystallizability
Structure, 25, 2017
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5XCT
 | | Crystal structure of P20.1 Fv-clasp fragment with its antigen peptide | | Descriptor: | C8 peptide, CHLORIDE ION, VH(S112C)-SARAH chimera, ... | | Authors: | Arimori, T, Takagi, J. | | Deposit date: | 2017-03-23 | | Release date: | 2017-10-04 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.17 Å) | | Cite: | Fv-clasp: An Artificially Designed Small Antibody Fragment with Improved Production Compatibility, Stability, and Crystallizability
Structure, 25, 2017
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3VN4
 | | Crystal structure of the exosite-containing fragment of human ADAMTS13 (P475S mutant) | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, A disintegrin and metalloproteinase with thrombospondin motifs 13, ... | | Authors: | Nakayama, D, Akiyama, M, Takeda, S, Kokame, K, Takagi, J, Miyata, T. | | Deposit date: | 2011-12-21 | | Release date: | 2012-12-26 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Structural analysis and biochemical studies of ADAMTS13 P475S mutant
To be Published
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6A48
 | | Crystal structure of reelin N-terminal region | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, Reelin | | Authors: | Nagae, M, Takagi, J. | | Deposit date: | 2018-06-19 | | Release date: | 2019-06-19 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structural studies of reelin N-terminal region provides insights into a unique structural arrangement and functional multimerization.
J.Biochem., 169, 2021
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6AHY
 | | Wnt signaling complex | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, ... | | Authors: | Hirai, H, Arimori, T, Matoba, K, Mihara, E, Takagi, J. | | Deposit date: | 2018-08-21 | | Release date: | 2019-05-01 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Crystal structure of a mammalian Wnt-frizzled complex.
Nat.Struct.Mol.Biol., 26, 2019
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